FMODB

FMODB: The database of quantum mechanical data based on the FMO method

Last updated: 2025-10-17

All entries: 77277

Number of unique PDB entries: 32023

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FMODB ID: 65QKZ

Calculation Name: 2AE8-A-Xray549

Preferred Name:

Target Type:

Ligand Name: magnesium ion

Ligand 3-letter code: MG

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 2AE8

Chain ID: A

ChEMBL ID:

UniProt ID: P64373

Base Structure: X-ray

Registration Date: 2025-10-11

Reference: Sci Data 11, 1164 (2024).

DOI: https://doi.org/10.1038/s41597-024-03999-2

Apendix: None


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptH
Protonation MOE:Protonate 3D
Complement ac.sh, 23 2024 Oct
Water No
Procedure Manual calculation
Remarks
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 179
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -1944107.752208
FMO2-HF: Nuclear repulsion 1874016.352398
FMO2-HF: Total energy -70091.39981
FMO2-MP2: Total energy -70297.001314


3D Structure Molmil
Snapshot
 
Ligand structure

ligand structure
Ligand Interaction
ligand interaction
Ligand binding energy
IFIE [kcal/mol] PIEDA [kcal/mol] Charge transfer value [e]
IFIE SUMIFIE SUM at MP2 level. ESElectro static interaction energy. EXExchange-repulsion energy. CT+mixCharge transfer and mixing terms energy. DI(MP2)Dispersion energy. q(I=>J)Charge transfer value from I to J fragments.
N/AN/AN/AN/AN/AN/A


Interactive mode: IFIE and PIEDA for fragment #1(A:1:MET)


Summations of interaction energy for fragment #1(A:1:MET)
IFIE [kcal/mol] PIEDA [kcal/mol] Charge transfer value [e]
IFIE SUMIFIE SUM at MP2 level. ESElectro static interaction energy. EXExchange-repulsion energy. CT+mixCharge transfer and mixing terms energy. DI(MP2)Dispersion energy. q(I=>J)Charge transfer value from I to J fragments.
-194.625-186.3123.685-4.62-7.378-0.048
Interaction energy analysis for fragmet #1(A:1:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.798 / q_NPA : 0.896
Distance from base fragment(s) [Å]
Dist
Interaction energy by IFIE and PIEDA
[kcal/mol]
| Total | > | ES | > | EX | >
| CT+mix | > | DI(MP2) | >
Fragment charge [e]
FCHARGE q_Mulliken
q_NPA q(I=>J)
Residue
Res #    RES   
Sort
Graph Options
X Axis Label
Y Axis Max Y Axis Min
Display   
frag_NumFragment number. ChainChain species. Res #Residue number. RES3-letter code of amino acid residue, ligand and solvent molecule. FCHARGEFormal charge [e]. q_MullikenFragment charge evaluated by Mulliken charge [e]. q_NPAFragment charge evaluated by natural population analysis(NPA) charge [e]. DISTDistance from Ligand [Å]. TotalIFIE at MP2 level [kcal/mol]. ESElectro static interaction energy by PIEDA [kcal/mol]. EXExchange-repulsion energy by PIEDA [kcal/mol]. CT+mixCharge transfer and mixing terms energy by PIEDA [kcal/mol]. DI(MP2)Dispersion energy by PIEDA [kcal/mol]. q(I=>J)Charge transfer value from I to J fragmens [e].
3A3TYR0-0.040-0.0482.678-3.5440.1003.005-2.216-4.432-0.021
19A19SER0-0.042-0.0583.859-13.778-13.5540.001-0.132-0.093-0.001
20A20ASP-1-0.842-0.9123.487-33.780-33.3700.000-0.062-0.3480.000
21A21ASP-1-0.833-0.8664.261-58.795-58.637-0.001-0.035-0.1230.000
79A79MET00.0250.0204.543-0.359-0.222-0.001-0.008-0.1280.000
82A82ASP-1-0.812-0.8632.686-60.014-56.2740.681-2.167-2.254-0.026
4A4GLN00.009-0.0255.5952.0972.0970.0000.0000.0000.000
5A5LYS10.8050.9139.20823.77323.7730.0000.0000.0000.000
6A6GLN00.0260.02712.680-0.183-0.1830.0000.0000.0000.000
7A7ARG10.7210.85416.25015.96615.9660.0000.0000.0000.000
8A8ASN0-0.087-0.03917.8840.5120.5120.0000.0000.0000.000
9A9THR0-0.032-0.01821.2580.3260.3260.0000.0000.0000.000
10A10ALA0-0.027-0.01324.920-0.172-0.1720.0000.0000.0000.000
11A11GLU-1-0.876-0.93927.963-10.351-10.3510.0000.0000.0000.000
12A12THR00.029-0.02524.280-0.166-0.1660.0000.0000.0000.000
13A13GLN00.008-0.00322.679-0.162-0.1620.0000.0000.0000.000
14A14LEU00.0090.01318.274-0.644-0.6440.0000.0000.0000.000
15A15ASN0-0.023-0.03414.728-1.123-1.1230.0000.0000.0000.000
16A16ILE00.0090.01912.0790.1490.1490.0000.0000.0000.000
17A17SER0-0.022-0.0168.770-0.784-0.7840.0000.0000.0000.000
18A18ILE00.0200.0097.2252.2652.2650.0000.0000.0000.000
22A22GLN00.000-0.0036.4853.4493.4490.0000.0000.0000.000
23A23SER0-0.055-0.0337.3303.8903.8900.0000.0000.0000.000
24A24PRO0-0.020-0.0159.7010.6150.6150.0000.0000.0000.000
25A25SER00.0240.01912.258-1.821-1.8210.0000.0000.0000.000
26A26HIS0-0.070-0.03114.1591.4131.4130.0000.0000.0000.000
27A27ILE0-0.010-0.01115.974-0.727-0.7270.0000.0000.0000.000
28A28ASN0-0.074-0.04718.6861.3261.3260.0000.0000.0000.000
29A29THR00.008-0.03320.2210.1570.1570.0000.0000.0000.000
30A30GLY00.0420.04222.4550.2530.2530.0000.0000.0000.000
31A31VAL0-0.0040.01525.2610.5600.5600.0000.0000.0000.000
32A32GLY0-0.004-0.01225.499-0.369-0.3690.0000.0000.0000.000
33A33PHE0-0.008-0.01826.278-0.266-0.2660.0000.0000.0000.000
34A34LEU00.0660.03021.853-0.311-0.3110.0000.0000.0000.000
35A35ASN00.0710.05021.481-1.045-1.0450.0000.0000.0000.000
36A36HIS0-0.0210.01721.284-0.964-0.9640.0000.0000.0000.000
37A37MET0-0.016-0.00221.939-0.539-0.5390.0000.0000.0000.000
38A38LEU00.0120.00817.298-0.719-0.7190.0000.0000.0000.000
39A39THR00.007-0.00617.149-1.241-1.2410.0000.0000.0000.000
40A40LEU0-0.051-0.02617.908-0.669-0.6690.0000.0000.0000.000
41A41PHE00.0250.01312.701-0.255-0.2550.0000.0000.0000.000
42A42THR0-0.037-0.00313.138-0.712-0.7120.0000.0000.0000.000
43A43PHE0-0.033-0.01513.908-0.544-0.5440.0000.0000.0000.000
44A44HIS0-0.029-0.01816.4100.0680.0680.0000.0000.0000.000
45A45SER0-0.034-0.03313.109-0.235-0.2350.0000.0000.0000.000
46A46GLY0-0.036-0.00611.918-0.666-0.6660.0000.0000.0000.000
47A47LEU0-0.020-0.0017.503-2.248-2.2480.0000.0000.0000.000
48A48SER0-0.018-0.0218.2942.9922.9920.0000.0000.0000.000
49A49LEU0-0.005-0.0229.362-2.529-2.5290.0000.0000.0000.000
50A50ASN0-0.058-0.02610.7273.1113.1110.0000.0000.0000.000
51A51ILE0-0.005-0.00713.611-0.680-0.6800.0000.0000.0000.000
52A52GLU-1-0.803-0.87616.693-14.189-14.1890.0000.0000.0000.000
53A53ALA00.0630.01419.684-0.426-0.4260.0000.0000.0000.000
54A54GLN0-0.0120.01822.4700.3320.3320.0000.0000.0000.000
55A55GLY0-0.057-0.02525.6100.4340.4340.0000.0000.0000.000
56A56ASP-1-0.846-0.90026.340-11.741-11.7410.0000.0000.0000.000
57A57ILE0-0.064-0.03228.6220.3230.3230.0000.0000.0000.000
58A58ASP-1-0.939-0.97330.681-9.078-9.0780.0000.0000.0000.000
59A59VAL0-0.050-0.02028.275-0.387-0.3870.0000.0000.0000.000
60A60ASP-1-0.850-0.91330.248-9.821-9.8210.0000.0000.0000.000
61A61ASP-1-0.812-0.92327.883-11.870-11.8700.0000.0000.0000.000
62A62HIS0-0.011-0.01327.605-0.218-0.2180.0000.0000.0000.000
63A63HIS00.0200.01526.746-0.468-0.4680.0000.0000.0000.000
64A64VAL00.0300.02423.933-0.651-0.6510.0000.0000.0000.000
65A65THR0-0.029-0.04222.877-1.007-1.0070.0000.0000.0000.000
66A66GLU-1-0.913-0.94822.254-12.766-12.7660.0000.0000.0000.000
67A67ASP-1-0.798-0.89521.248-14.235-14.2350.0000.0000.0000.000
68A68ILE0-0.004-0.01217.864-1.213-1.2130.0000.0000.0000.000
69A69GLY00.0300.01517.174-1.239-1.2390.0000.0000.0000.000
70A70ILE0-0.014-0.01117.344-1.064-1.0640.0000.0000.0000.000
71A71VAL0-0.050-0.01513.578-0.976-0.9760.0000.0000.0000.000
72A72ILE00.0410.01212.883-1.903-1.9030.0000.0000.0000.000
73A73GLY00.0310.01212.549-1.592-1.5920.0000.0000.0000.000
74A74GLN0-0.031-0.03213.064-1.574-1.5740.0000.0000.0000.000
75A75LEU0-0.033-0.0098.450-1.247-1.2470.0000.0000.0000.000
76A76LEU00.0170.0158.015-3.648-3.6480.0000.0000.0000.000
77A77LEU0-0.054-0.0259.569-0.816-0.8160.0000.0000.0000.000
78A78GLU-1-0.921-0.9606.691-29.177-29.1770.0000.0000.0000.000
80A80ILE0-0.046-0.0366.079-0.346-0.3460.0000.0000.0000.000
81A81LYS10.8640.9398.22724.53624.5360.0000.0000.0000.000
83A83LYS10.7630.8775.61338.88138.8810.0000.0000.0000.000
84A84LYS10.9160.9587.63324.74024.7400.0000.0000.0000.000
85A85HIS0-0.016-0.00310.6161.4111.4110.0000.0000.0000.000
86A86PHE00.0180.00311.379-1.504-1.5040.0000.0000.0000.000
87A87VAL00.0110.01813.7101.3781.3780.0000.0000.0000.000
88A88ARG10.8270.91315.36516.77816.7780.0000.0000.0000.000
89A89TYR0-0.045-0.04016.6460.2690.2690.0000.0000.0000.000
90A90GLY00.0600.03519.245-0.410-0.4100.0000.0000.0000.000
91A91THR0-0.086-0.06020.1340.7960.7960.0000.0000.0000.000
92A92MET0-0.0240.01622.214-0.291-0.2910.0000.0000.0000.000
93A93TYR00.0320.01324.2980.3860.3860.0000.0000.0000.000
94A94ILE0-0.009-0.00423.943-0.250-0.2500.0000.0000.0000.000
95A95PRO00.0020.00427.8170.2080.2080.0000.0000.0000.000
96A96MET0-0.025-0.01128.921-0.460-0.4600.0000.0000.0000.000
97A97ASP-1-0.867-0.93631.846-8.992-8.9920.0000.0000.0000.000
98A98GLU-1-0.798-0.86735.544-8.907-8.9070.0000.0000.0000.000
99A99THR0-0.057-0.03331.6750.0500.0500.0000.0000.0000.000
100A100LEU0-0.086-0.04631.114-0.097-0.0970.0000.0000.0000.000
101A101ALA00.0550.03628.2480.1960.1960.0000.0000.0000.000
102A102ARG10.7940.87627.64110.30310.3030.0000.0000.0000.000
103A103VAL0-0.0110.01322.1290.0590.0590.0000.0000.0000.000
104A104VAL0-0.024-0.00923.406-0.180-0.1800.0000.0000.0000.000
105A105VAL00.016-0.00617.3060.0890.0890.0000.0000.0000.000
106A106ASP-1-0.789-0.87519.606-14.709-14.7090.0000.0000.0000.000
107A107ILE00.0320.01912.7330.2950.2950.0000.0000.0000.000
108A108SER0-0.016-0.00616.6240.1170.1170.0000.0000.0000.000
109A109GLY00.0120.01517.8340.4290.4290.0000.0000.0000.000
110A110ARG10.8820.93318.64813.55513.5550.0000.0000.0000.000
111A111PRO0-0.0010.00420.371-0.021-0.0210.0000.0000.0000.000
112A112TYR0-0.053-0.02521.9080.7590.7590.0000.0000.0000.000
113A113LEU00.0340.02123.383-0.488-0.4880.0000.0000.0000.000
114A114SER0-0.065-0.00925.3070.5760.5760.0000.0000.0000.000
115A115PHE00.0820.02026.708-0.488-0.4880.0000.0000.0000.000
116A116ASN0-0.039-0.02129.2360.5080.5080.0000.0000.0000.000
117A117ALA00.007-0.01130.7790.0820.0820.0000.0000.0000.000
118A118SER0-0.016-0.00332.7330.0860.0860.0000.0000.0000.000
119A119LEU00.0030.00530.7040.0980.0980.0000.0000.0000.000
120A120SER0-0.022-0.05335.2370.3220.3220.0000.0000.0000.000
121A121LYS10.8150.90137.1418.2848.2840.0000.0000.0000.000
122A122GLU-1-0.845-0.91636.634-8.100-8.1000.0000.0000.0000.000
123A123LYS10.8440.91335.3078.7648.7640.0000.0000.0000.000
124A124VAL0-0.053-0.02031.0890.1840.1840.0000.0000.0000.000
125A125GLY0-0.019-0.01033.413-0.222-0.2220.0000.0000.0000.000
126A126THR0-0.001-0.01833.7560.1720.1720.0000.0000.0000.000
127A127PHE00.0300.03326.9670.1240.1240.0000.0000.0000.000
128A128ASP-1-0.763-0.86432.284-8.953-8.9530.0000.0000.0000.000
129A129THR0-0.054-0.05731.386-0.429-0.4290.0000.0000.0000.000
130A130GLU-1-0.933-0.96731.189-9.555-9.5550.0000.0000.0000.000
131A131LEU00.0280.02227.833-0.237-0.2370.0000.0000.0000.000
132A132VAL0-0.056-0.03226.123-0.590-0.5900.0000.0000.0000.000
133A133GLU-1-0.930-0.96225.652-10.963-10.9630.0000.0000.0000.000
134A134GLU-1-0.865-0.93525.772-11.615-11.6150.0000.0000.0000.000
135A135PHE00.0150.01018.187-0.728-0.7280.0000.0000.0000.000
136A136PHE0-0.013-0.01920.234-0.805-0.8050.0000.0000.0000.000
137A137ARG10.9630.98021.44611.07811.0780.0000.0000.0000.000
138A138ALA00.0230.01820.924-0.329-0.3290.0000.0000.0000.000
139A139VAL00.0090.01315.787-0.762-0.7620.0000.0000.0000.000
140A140VAL0-0.040-0.02817.313-0.870-0.8700.0000.0000.0000.000
141A141ILE0-0.042-0.01418.813-0.233-0.2330.0000.0000.0000.000
142A142ASN0-0.032-0.03316.356-0.145-0.1450.0000.0000.0000.000
143A143ALA00.0050.00414.218-0.766-0.7660.0000.0000.0000.000
144A144ARG10.7890.89615.05215.12015.1200.0000.0000.0000.000
145A145LEU00.0190.01914.6440.0900.0900.0000.0000.0000.000
146A146THR0-0.054-0.00818.4220.8140.8140.0000.0000.0000.000
147A147THR0-0.012-0.02219.922-0.175-0.1750.0000.0000.0000.000
148A148HIS00.0410.01922.9490.6900.6900.0000.0000.0000.000
149A149ILE00.0190.01623.058-0.343-0.3430.0000.0000.0000.000
150A150ASP-1-0.785-0.86926.916-10.045-10.0450.0000.0000.0000.000
151A151LEU00.004-0.00330.267-0.227-0.2270.0000.0000.0000.000
152A152ILE0-0.070-0.03131.9650.2730.2730.0000.0000.0000.000
153A153ARG10.9210.95334.8858.8428.8420.0000.0000.0000.000
154A154GLY00.0540.02934.943-0.350-0.3500.0000.0000.0000.000
155A155GLY0-0.005-0.00436.5010.2500.2500.0000.0000.0000.000
156A156ASN0-0.040-0.01435.161-0.080-0.0800.0000.0000.0000.000
157A157THR00.0510.01633.330-0.168-0.1680.0000.0000.0000.000
158A158HIS00.0240.01928.675-0.255-0.2550.0000.0000.0000.000
159A159HIS10.7840.87630.2398.9618.9610.0000.0000.0000.000
160A160GLU-1-0.718-0.82530.259-9.453-9.4530.0000.0000.0000.000
161A161ILE00.0380.02226.482-0.326-0.3260.0000.0000.0000.000
162A162GLU-1-0.808-0.91225.504-12.430-12.4300.0000.0000.0000.000
163A163ALA0-0.053-0.03225.330-0.533-0.5330.0000.0000.0000.000
164A164ILE00.0190.01024.736-0.388-0.3880.0000.0000.0000.000
165A165PHE00.0650.03120.422-0.521-0.5210.0000.0000.0000.000
166A166LYS10.8750.95520.92011.49711.4970.0000.0000.0000.000
167A167ALA0-0.013-0.00821.242-0.553-0.5530.0000.0000.0000.000
168A168PHE00.0320.00016.822-0.387-0.3870.0000.0000.0000.000
169A169SER0-0.014-0.02916.976-0.980-0.9800.0000.0000.0000.000
170A170ARG10.9300.95416.45614.90414.9040.0000.0000.0000.000
171A171ALA0-0.048-0.00818.021-0.425-0.4250.0000.0000.0000.000
172A172LEU00.0380.00513.123-0.219-0.2190.0000.0000.0000.000
173A173GLY00.0640.03313.211-1.300-1.3000.0000.0000.0000.000
174A174ILE0-0.071-0.03113.938-0.660-0.6600.0000.0000.0000.000
175A175ALA0-0.0140.00215.477-0.452-0.4520.0000.0000.0000.000
176A176LEU00.0420.0009.200-0.493-0.4930.0000.0000.0000.000
177A177THR0-0.050-0.00610.573-2.712-2.7120.0000.0000.0000.000
178A178ALA0-0.007-0.01110.2600.7710.7710.0000.0000.0000.000
179A179THR-1-0.942-0.97212.250-18.740-18.7400.0000.0000.0000.000